TABLE 2.

SNP detection probes of the 23S rRNA rrl gene 2058A-to-G or -C and 2059A-to-G mutation and the erm(41) gene 28T-to-C mutation

Probe	Gene	Nucleotide position(s)	Base change	LNA probe sequencea	Tm (°C)
WT_MAB	23S rRNA	2058–2059	AA to AA	5′-HEX-ACG+A+A+A+AGA+C+CC-IABkFQ-3′	65.1
AA_2058G	23S rRNA	2058	AA to GA	5′-Cy5-ACG+A+G+A+AGA+CCC-IABkFQ-3′	68.2
AA_2058C	23S rRNA	2058	AA to CA	5′-6FAM-ACG+A+C+A+AGA+CCC-IABkFQ-3′	66.8
AA_2059G	23S rRNA	2059	AA to AG	5′-6FAM-ACG+A+A+G+AGA+CCC-IABkFQ-3′	68.2
C Allele	erm(41)	28	T to C	5′-6FAM-CCA+G+C+GGGGC/IABkFQ-3′	67.4
T Allele	erm(41)	28	T to T	5′-HEX-CCA+G+T+GGGGC-IABkFQ-3′	69.3

^aHEX, hexachlorofluorescein; 6FAM, 6-carboxyfluorescein; IABkFQ, Iowa Black fluorescent quencher.